Fri Sep 19 04:53:34 UTC 2025 I: starting to build tombo/forky/arm64 on jenkins on '2025-09-19 04:53' Fri Sep 19 04:53:34 UTC 2025 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/arm64_5/121803/console.log Fri Sep 19 04:53:34 UTC 2025 I: Downloading source for forky/tombo=1.5.1-7 --2025-09-19 04:53:34-- http://deb.debian.org/debian/pool/main/t/tombo/tombo_1.5.1-7.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2267 (2.2K) [text/prs.lines.tag] Saving to: ‘tombo_1.5.1-7.dsc’ 0K .. 100% 119M=0s 2025-09-19 04:53:34 (119 MB/s) - ‘tombo_1.5.1-7.dsc’ saved [2267/2267] Fri Sep 19 04:53:34 UTC 2025 I: tombo_1.5.1-7.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: tombo Binary: tombo, tombo-doc Architecture: any all Version: 1.5.1-7 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille Homepage: https://github.com/nanoporetech/tombo Standards-Version: 4.7.0 Vcs-Browser: https://salsa.debian.org/med-team/tombo Vcs-Git: https://salsa.debian.org/med-team/tombo.git Testsuite: autopkgtest Build-Depends: cython3, debhelper-compat (= 13), dh-python, libjs-mathjax, python3-all-dev, python3-h5py , python3-mappy , python3-nose2 , python3-numpy , python3-scipy , python3-setuptools, python3-sphinx, python3-sphinx-argparse, python3-sphinx-rtd-theme, python3-tqdm , sphinx-doc Package-List: tombo deb science optional arch=any tombo-doc deb doc optional arch=all Checksums-Sha1: 94f33539552d8c2f7e6c06987fd264400fc17f84 22294835 tombo_1.5.1.orig.tar.gz 89090ba7cc0a0903969d8a298637acb99145f93d 9528 tombo_1.5.1-7.debian.tar.xz Checksums-Sha256: f5f7ce37baee40b851ea867c2b835e6eae324ef90bdeb23fb931fde3272769a0 22294835 tombo_1.5.1.orig.tar.gz 7543db04f30121f2a2b5d22edb590a79b894b04dce37229f9bfd8c7a7baca8ea 9528 tombo_1.5.1-7.debian.tar.xz Files: 3709e4f4d6f4c58ec2d6ae216059929c 22294835 tombo_1.5.1.orig.tar.gz 7b8e973e64ac9656fdfb2238911c5920 9528 tombo_1.5.1-7.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQIzBAEBCgAdFiEEUtW9Dn1NsITjS1hl1KQc+t2yDbUFAmdHgNEACgkQ1KQc+t2y DbXhMRAAxgFk6YCm/LYGvd+RygfbLtS5kgD81CWOCUWZqP1rLidPkPhHWo4OQ40B BLtA29oiD0vpAhYIWLAR4Kq4l5IWj8RPGeOah82mQD/Br6njGQpgNOJHJhl9j89g ZPn6CJaJMiJH+w7RVB6mAeeABoOrjk7aoYkLJyK145fLfWY8YMtD50Z7PW1wZRA2 Z5AVpQd7dmf2cLYZL+5eOs/cmy2cjGhb9aNLjDTK3FSlQNdFj49pMBKMffI6JTRp ZikremJqmCTDMJ0bkBBkFBcgUiouHFPtZH2AY/JhK53x9ED4qRqXYGmBrDLX+S/Z ih6WNxsLk2Ohbki+wRclaCrQbCR8An9+cySGbfvo6lSHF+G46DCXeQOW+2SQ4TBe 7HyHMGGzB/cGjavwjp3ocJt/CzXUHNameKntmscU6cI/xhf7xknmB50JySXBQkjf VMobWR5MyDOKeCQnkhc9hXtcbKLmAKoTFKciCdj1tNGWhwBXG8xsoA6fNkACrLPR 0ofDvKv9csHyEZhZ65Pcq6HUT2V++8nOVaBYUKpP7QR4oCq06F3YNnkU8qVywMe/ re/iyNMxBzPCzpN8Kv0scMMD7Atgw3AhatG88TN/V/OdHa/cWxsI5WEDLPXkrYEV xNoJhJ6H5a7xaL+cISDkrYBmyl2pTF0CyLY8tXSrJGN2NLQTalU= =nPqk -----END PGP SIGNATURE----- Fri Sep 19 04:53:34 UTC 2025 I: Checking whether the package is not for us Fri Sep 19 04:53:34 UTC 2025 I: Starting 1st build on remote node codethink03-arm64.debian.net. Fri Sep 19 04:53:34 UTC 2025 I: Preparing to do remote build '1' on codethink03-arm64.debian.net. Fri Sep 19 04:55:11 UTC 2025 I: Deleting $TMPDIR on codethink03-arm64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Wed Oct 21 23:16:36 -12 2026 I: pbuilder-time-stamp: 1792667796 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/forky-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [tombo_1.5.1-7.dsc] I: copying [./tombo_1.5.1.orig.tar.gz] I: copying [./tombo_1.5.1-7.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./tombo_1.5.1-7.dsc: no acceptable signature found dpkg-source: info: extracting tombo in tombo-1.5.1 dpkg-source: info: unpacking tombo_1.5.1.orig.tar.gz dpkg-source: info: unpacking tombo_1.5.1-7.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying no_future.patch dpkg-source: info: applying 2to3.patch dpkg-source: info: applying mathjax.patch dpkg-source: info: applying cython3-fix.patch dpkg-source: info: applying no_install_depends_cython.patch dpkg-source: info: applying remove-pkg-resources-usage.patch dpkg-source: info: applying remove-distutils-usage.patch dpkg-source: info: applying remove-badges-in-doc.patch dpkg-source: info: applying fix-invalid-escape-sequences.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/3220342/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build/reproducible-path' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='arm64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' DISTRIBUTION='forky' HOME='/root' HOST_ARCH='arm64' IFS=' ' INVOCATION_ID='8018dd6242144731ae9984a225dd268a' LANG='C' LANGUAGE='en_US:en' LC_ALL='C' MAIL='/var/mail/root' OPTIND='1' PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' PBCURRENTCOMMANDLINEOPERATION='build' PBUILDER_OPERATION='build' PBUILDER_PKGDATADIR='/usr/share/pbuilder' PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' PBUILDER_SYSCONFDIR='/etc' PPID='3220342' PS1='# ' PS2='> ' PS4='+ ' PWD='/' SHELL='/bin/bash' SHLVL='2' SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.QV9Bk9PJ/pbuilderrc_lGYK --distribution forky --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/forky-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.QV9Bk9PJ/b1 --logfile b1/build.log tombo_1.5.1-7.dsc' SUDO_GID='109' SUDO_HOME='/var/lib/jenkins' SUDO_UID='104' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://192.168.101.4:3128' I: uname -a Linux codethink03-arm64 6.12.43+deb13-cloud-arm64 #1 SMP Debian 6.12.43-1 (2025-08-27) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Aug 10 2025 /bin -> usr/bin I: user script /srv/workspace/pbuilder/3220342/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: arm64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: cython3, debhelper-compat (= 13), dh-python, libjs-mathjax, python3-all-dev, python3-h5py, python3-mappy, python3-nose2, python3-numpy, python3-scipy, python3-setuptools, python3-sphinx, python3-sphinx-argparse, python3-sphinx-rtd-theme, python3-tqdm, sphinx-doc dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 20020 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on cython3; however: Package cython3 is not installed. pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on dh-python; however: Package dh-python is not installed. pbuilder-satisfydepends-dummy depends on libjs-mathjax; however: Package libjs-mathjax is not installed. pbuilder-satisfydepends-dummy depends on python3-all-dev; however: Package python3-all-dev is not installed. pbuilder-satisfydepends-dummy depends on python3-h5py; however: Package python3-h5py is not installed. pbuilder-satisfydepends-dummy depends on python3-mappy; however: Package python3-mappy is not installed. pbuilder-satisfydepends-dummy depends on python3-nose2; however: Package python3-nose2 is not installed. pbuilder-satisfydepends-dummy depends on python3-numpy; however: Package python3-numpy is not installed. pbuilder-satisfydepends-dummy depends on python3-scipy; however: Package python3-scipy is not installed. pbuilder-satisfydepends-dummy depends on python3-setuptools; however: Package python3-setuptools is not installed. pbuilder-satisfydepends-dummy depends on python3-sphinx; however: Package python3-sphinx is not installed. pbuilder-satisfydepends-dummy depends on python3-sphinx-argparse; however: Package python3-sphinx-argparse is not installed. pbuilder-satisfydepends-dummy depends on python3-sphinx-rtd-theme; however: Package python3-sphinx-rtd-theme is not installed. pbuilder-satisfydepends-dummy depends on python3-tqdm; however: Package python3-tqdm is not installed. pbuilder-satisfydepends-dummy depends on sphinx-doc; however: Package sphinx-doc is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} ca-certificates{a} cython3{a} debhelper{a} dh-autoreconf{a} dh-python{a} dh-strip-nondeterminism{a} docutils-common{a} docutils-doc{a} dwz{a} file{a} fonts-font-awesome{a} fonts-lato{a} fonts-mathjax{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libaec0{a} libarchive-zip-perl{a} libblas3{a} libbrotli1{a} libcares2{a} libcom-err2{a} libcurl4t64{a} libdebhelper-perl{a} libelf1t64{a} libexpat1{a} libexpat1-dev{a} libffi8{a} libfile-stripnondeterminism-perl{a} libgfortran5{a} libgnutls30t64{a} libgssapi-krb5-2{a} libhdf5-310{a} libhdf5-hl-310{a} libicu76{a} libidn2-0{a} libjs-jquery{a} libjs-mathjax{a} libjs-sphinxdoc{a} libjs-underscore{a} libjson-perl{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} liblapack3{a} libldap2{a} liblzf1{a} libmagic-mgc{a} libmagic1t64{a} libnghttp2-14{a} libnghttp3-9{a} libnode115{a} libp11-kit0{a} libpipeline1{a} libpsl5t64{a} libpython3-all-dev{a} libpython3-dev{a} libpython3-stdlib{a} libpython3.13{a} libpython3.13-dev{a} libpython3.13-minimal{a} libpython3.13-stdlib{a} libreadline8t64{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libssh2-1t64{a} libsz2{a} libtasn1-6{a} libtool{a} libuchardet0{a} libunistring5{a} libuv1t64{a} libxml2-16{a} m4{a} man-db{a} media-types{a} netbase{a} node-acorn{a} node-balanced-match{a} node-brace-expansion{a} node-cjs-module-lexer{a} node-commander{a} node-corepack{a} node-mathjax-full{a} node-minimatch{a} node-mj-context-menu{a} node-speech-rule-engine{a} node-undici{a} node-xtend{a} nodejs{a} openssl{a} po-debconf{a} python-babel-localedata{a} python-requests-doc{a} python3{a} python3-alabaster{a} python3-all{a} python3-all-dev{a} python3-autocommand{a} python3-babel{a} python3-certifi{a} python3-chardet{a} python3-charset-normalizer{a} python3-decorator{a} python3-defusedxml{a} python3-dev{a} python3-doc{a} python3-docutils{a} python3-h5py{a} python3-h5py-serial{a} python3-idna{a} python3-imagesize{a} python3-inflect{a} python3-jaraco.context{a} python3-jaraco.functools{a} python3-jaraco.text{a} python3-jinja2{a} python3-mappy{a} python3-markupsafe{a} python3-minimal{a} python3-more-itertools{a} python3-nose2{a} python3-numpy{a} python3-numpy-dev{a} python3-packaging{a} python3-pkg-resources{a} python3-pygments{a} python3-requests{a} python3-roman{a} python3-roman-numerals{a} python3-scipy{a} python3-setuptools{a} python3-snowballstemmer{a} python3-sphinx{a} python3-sphinx-argparse{a} python3-sphinx-rtd-theme{a} python3-sphinxcontrib.jquery{a} python3-tqdm{a} python3-typeguard{a} python3-typing-extensions{a} python3-urllib3{a} python3-zipp{a} python3.13{a} python3.13-dev{a} python3.13-doc{a} python3.13-minimal{a} readline-common{a} sensible-utils{a} sgml-base{a} sphinx-common{a} sphinx-doc{a} sphinx-rtd-theme-common{a} tzdata{a} xml-core{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: curl javascript-common krb5-locales libarchive-cpio-perl libjson-xs-perl libldap-common libltdl-dev libmail-sendmail-perl libpaper-utils libsasl2-modules lynx nodejs-doc publicsuffix python3-coverage python3-pil python3-pooch python3-yaml wget 0 packages upgraded, 163 newly installed, 0 to remove and 0 not upgraded. Need to get 128 MB of archives. After unpacking 616 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian forky/main arm64 fonts-lato all 2.015-1 [2780 kB] Get: 2 http://deb.debian.org/debian forky/main arm64 libexpat1 arm64 2.7.2-1 [95.7 kB] Get: 3 http://deb.debian.org/debian forky/main arm64 libpython3.13-minimal arm64 3.13.7-1 [857 kB] Get: 4 http://deb.debian.org/debian forky/main arm64 python3.13-minimal arm64 3.13.7-1 [2001 kB] Get: 5 http://deb.debian.org/debian forky/main arm64 python3-minimal arm64 3.13.7-1 [27.2 kB] Get: 6 http://deb.debian.org/debian forky/main arm64 media-types all 13.0.0 [29.3 kB] Get: 7 http://deb.debian.org/debian forky/main arm64 netbase all 6.5 [12.4 kB] Get: 8 http://deb.debian.org/debian forky/main arm64 tzdata all 2025b-5 [260 kB] Get: 9 http://deb.debian.org/debian forky/main arm64 libffi8 arm64 3.5.2-2 [21.5 kB] Get: 10 http://deb.debian.org/debian forky/main arm64 readline-common all 8.3-3 [74.8 kB] Get: 11 http://deb.debian.org/debian forky/main arm64 libreadline8t64 arm64 8.3-3 [169 kB] Get: 12 http://deb.debian.org/debian forky/main arm64 libpython3.13-stdlib arm64 3.13.7-1 [1895 kB] Get: 13 http://deb.debian.org/debian forky/main arm64 python3.13 arm64 3.13.7-1 [761 kB] Get: 14 http://deb.debian.org/debian forky/main arm64 libpython3-stdlib arm64 3.13.7-1 [10.2 kB] Get: 15 http://deb.debian.org/debian forky/main arm64 python3 arm64 3.13.7-1 [28.3 kB] Get: 16 http://deb.debian.org/debian forky/main arm64 python3-numpy-dev arm64 1:2.2.4+ds-1.2 [138 kB] Get: 17 http://deb.debian.org/debian forky/main arm64 libblas3 arm64 3.12.1-7 [135 kB] Get: 18 http://deb.debian.org/debian forky/main arm64 libgfortran5 arm64 15.2.0-4 [371 kB] Get: 19 http://deb.debian.org/debian forky/main arm64 liblapack3 arm64 3.12.1-7 [1846 kB] Get: 20 http://deb.debian.org/debian forky/main arm64 python3-numpy arm64 1:2.2.4+ds-1.2 [3620 kB] Get: 21 http://deb.debian.org/debian forky/main arm64 sensible-utils all 0.0.26 [27.0 kB] Get: 22 http://deb.debian.org/debian forky/main arm64 openssl arm64 3.5.2-1 [1457 kB] Get: 23 http://deb.debian.org/debian forky/main arm64 ca-certificates all 20250419 [162 kB] Get: 24 http://deb.debian.org/debian forky/main arm64 libmagic-mgc arm64 1:5.46-5 [338 kB] Get: 25 http://deb.debian.org/debian forky/main arm64 libmagic1t64 arm64 1:5.46-5 [103 kB] Get: 26 http://deb.debian.org/debian forky/main arm64 file arm64 1:5.46-5 [43.7 kB] Get: 27 http://deb.debian.org/debian forky/main arm64 gettext-base arm64 0.23.1-2+b1 [241 kB] Get: 28 http://deb.debian.org/debian forky/main arm64 libuchardet0 arm64 0.0.8-2 [69.0 kB] Get: 29 http://deb.debian.org/debian forky/main arm64 groff-base arm64 1.23.0-9 [1130 kB] Get: 30 http://deb.debian.org/debian forky/main arm64 bsdextrautils arm64 2.41.1-3 [98.1 kB] Get: 31 http://deb.debian.org/debian forky/main arm64 libpipeline1 arm64 1.5.8-1 [40.2 kB] Get: 32 http://deb.debian.org/debian forky/main arm64 man-db arm64 2.13.1-1 [1453 kB] Get: 33 http://deb.debian.org/debian forky/main arm64 m4 arm64 1.4.20-1 [316 kB] Get: 34 http://deb.debian.org/debian forky/main arm64 autoconf all 2.72-3.1 [494 kB] Get: 35 http://deb.debian.org/debian forky/main arm64 autotools-dev all 20240727.1 [60.2 kB] Get: 36 http://deb.debian.org/debian forky/main arm64 automake all 1:1.17-4 [862 kB] Get: 37 http://deb.debian.org/debian forky/main arm64 autopoint all 0.23.1-2 [770 kB] Get: 38 http://deb.debian.org/debian forky/main arm64 cython3 arm64 3.0.11+dfsg-2+b1 [2255 kB] Get: 39 http://deb.debian.org/debian forky/main arm64 libdebhelper-perl all 13.26 [91.8 kB] Get: 40 http://deb.debian.org/debian forky/main arm64 libtool all 2.5.4-5 [540 kB] Get: 41 http://deb.debian.org/debian forky/main arm64 dh-autoreconf all 21 [12.2 kB] Get: 42 http://deb.debian.org/debian forky/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 43 http://deb.debian.org/debian forky/main arm64 libfile-stripnondeterminism-perl all 1.15.0-1 [19.9 kB] Get: 44 http://deb.debian.org/debian forky/main arm64 dh-strip-nondeterminism all 1.15.0-1 [8812 B] Get: 45 http://deb.debian.org/debian forky/main arm64 libelf1t64 arm64 0.193-3 [189 kB] Get: 46 http://deb.debian.org/debian forky/main arm64 dwz arm64 0.16-2 [100 kB] Get: 47 http://deb.debian.org/debian forky/main arm64 libunistring5 arm64 1.3-2 [453 kB] Get: 48 http://deb.debian.org/debian forky/main arm64 libxml2-16 arm64 2.14.5+dfsg-0.2 [582 kB] Get: 49 http://deb.debian.org/debian forky/main arm64 gettext arm64 0.23.1-2+b1 [1612 kB] Get: 50 http://deb.debian.org/debian forky/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 51 http://deb.debian.org/debian forky/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 52 http://deb.debian.org/debian forky/main arm64 debhelper all 13.26 [939 kB] Get: 53 http://deb.debian.org/debian forky/main arm64 dh-python all 6.20250414 [116 kB] Get: 54 http://deb.debian.org/debian forky/main arm64 sgml-base all 1.31+nmu1 [10.9 kB] Get: 55 http://deb.debian.org/debian forky/main arm64 xml-core all 0.19 [20.1 kB] Get: 56 http://deb.debian.org/debian forky/main arm64 docutils-common all 0.21.2+dfsg-2 [128 kB] Get: 57 http://deb.debian.org/debian forky/main arm64 docutils-doc all 0.21.2+dfsg-2 [1122 kB] Get: 58 http://deb.debian.org/debian forky/main arm64 fonts-font-awesome all 5.0.10+really4.7.0~dfsg-4.1 [517 kB] Get: 59 http://deb.debian.org/debian forky/main arm64 fonts-mathjax all 2.7.9+dfsg-1 [2210 kB] Get: 60 http://deb.debian.org/debian forky/main arm64 libaec0 arm64 1.1.4-2 [22.6 kB] Get: 61 http://deb.debian.org/debian forky/main arm64 libbrotli1 arm64 1.1.0-2+b7 [308 kB] Get: 62 http://deb.debian.org/debian forky/main arm64 libcares2 arm64 1.34.5-1 [92.7 kB] Get: 63 http://deb.debian.org/debian forky/main arm64 libcom-err2 arm64 1.47.2-3+b3 [24.9 kB] Get: 64 http://deb.debian.org/debian forky/main arm64 libkrb5support0 arm64 1.21.3-5 [32.4 kB] Get: 65 http://deb.debian.org/debian forky/main arm64 libk5crypto3 arm64 1.21.3-5 [81.2 kB] Get: 66 http://deb.debian.org/debian forky/main arm64 libkeyutils1 arm64 1.6.3-6 [9716 B] Get: 67 http://deb.debian.org/debian forky/main arm64 libkrb5-3 arm64 1.21.3-5 [308 kB] Get: 68 http://deb.debian.org/debian forky/main arm64 libgssapi-krb5-2 arm64 1.21.3-5 [127 kB] Get: 69 http://deb.debian.org/debian forky/main arm64 libidn2-0 arm64 2.3.8-4 [108 kB] Get: 70 http://deb.debian.org/debian forky/main arm64 libsasl2-modules-db arm64 2.1.28+dfsg1-9 [20.1 kB] Get: 71 http://deb.debian.org/debian forky/main arm64 libsasl2-2 arm64 2.1.28+dfsg1-9 [55.6 kB] Get: 72 http://deb.debian.org/debian forky/main arm64 libldap2 arm64 2.6.10+dfsg-1 [179 kB] Get: 73 http://deb.debian.org/debian forky/main arm64 libnghttp2-14 arm64 1.64.0-1.1+b1 [71.7 kB] Get: 74 http://deb.debian.org/debian forky/main arm64 libnghttp3-9 arm64 1.11.0-1 [66.7 kB] Get: 75 http://deb.debian.org/debian forky/main arm64 libpsl5t64 arm64 0.21.2-1.1+b1 [57.1 kB] Get: 76 http://deb.debian.org/debian forky/main arm64 libp11-kit0 arm64 0.25.5-3 [409 kB] Get: 77 http://deb.debian.org/debian forky/main arm64 libtasn1-6 arm64 4.20.0-2 [47.3 kB] Get: 78 http://deb.debian.org/debian forky/main arm64 libgnutls30t64 arm64 3.8.9-3 [1375 kB] Get: 79 http://deb.debian.org/debian forky/main arm64 librtmp1 arm64 2.4+20151223.gitfa8646d.1-3 [56.3 kB] Get: 80 http://deb.debian.org/debian forky/main arm64 libssh2-1t64 arm64 1.11.1-1 [235 kB] Get: 81 http://deb.debian.org/debian forky/main arm64 libcurl4t64 arm64 8.16.0-1 [388 kB] Get: 82 http://deb.debian.org/debian forky/main arm64 libexpat1-dev arm64 2.7.2-1 [290 kB] Get: 83 http://deb.debian.org/debian forky/main arm64 libsz2 arm64 1.1.4-2 [8072 B] Get: 84 http://deb.debian.org/debian forky/main arm64 libhdf5-310 arm64 1.14.5+repack-4 [1177 kB] Get: 85 http://deb.debian.org/debian forky/main arm64 libhdf5-hl-310 arm64 1.14.5+repack-4 [68.4 kB] Get: 86 http://deb.debian.org/debian forky/main arm64 libicu76 arm64 76.1-4 [9524 kB] Get: 87 http://deb.debian.org/debian forky/main arm64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [326 kB] Get: 88 http://deb.debian.org/debian forky/main arm64 libjs-mathjax all 2.7.9+dfsg-1 [5667 kB] Get: 89 http://deb.debian.org/debian forky/main arm64 libjs-sphinxdoc all 8.2.3-6 [27.5 kB] Get: 90 http://deb.debian.org/debian forky/main arm64 libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [116 kB] Get: 91 http://deb.debian.org/debian forky/main arm64 libjson-perl all 4.10000-1 [87.5 kB] Get: 92 http://deb.debian.org/debian forky/main arm64 liblzf1 arm64 3.6-4+b3 [10.1 kB] Get: 93 http://deb.debian.org/debian forky/main arm64 libuv1t64 arm64 1.51.0-2 [150 kB] Get: 94 http://deb.debian.org/debian forky/main arm64 node-xtend all 4.0.2-3 [3932 B] Get: 95 http://deb.debian.org/debian forky/main arm64 node-corepack all 0.24.0-5 [712 kB] Get: 96 http://deb.debian.org/debian forky/main arm64 nodejs arm64 20.19.2+dfsg-1 [352 kB] Get: 97 http://deb.debian.org/debian forky/main arm64 node-acorn all 8.8.1+ds+~cs25.17.7-2 [128 kB] Get: 98 http://deb.debian.org/debian forky/main arm64 node-cjs-module-lexer all 1.2.3+dfsg-1 [30.6 kB] Get: 99 http://deb.debian.org/debian forky/main arm64 node-balanced-match all 2.0.0-1 [4872 B] Get: 100 http://deb.debian.org/debian forky/main arm64 node-brace-expansion all 2.0.1+~1.1.0-2 [8012 B] Get: 101 http://deb.debian.org/debian forky/main arm64 node-minimatch all 9.0.3-6 [76.8 kB] Get: 102 http://deb.debian.org/debian forky/main arm64 node-undici all 7.3.0+dfsg1+~cs24.12.11-2 [333 kB] Get: 103 http://deb.debian.org/debian forky/main arm64 libnode115 arm64 20.19.2+dfsg-1 [10.9 MB] Get: 104 http://deb.debian.org/debian forky/main arm64 libpython3.13 arm64 3.13.7-1 [1978 kB] Get: 105 http://deb.debian.org/debian forky/main arm64 zlib1g-dev arm64 1:1.3.dfsg+really1.3.1-1+b1 [917 kB] Get: 106 http://deb.debian.org/debian forky/main arm64 libpython3.13-dev arm64 3.13.7-1 [4924 kB] Get: 107 http://deb.debian.org/debian forky/main arm64 libpython3-dev arm64 3.13.7-1 [10.5 kB] Get: 108 http://deb.debian.org/debian forky/main arm64 libpython3-all-dev arm64 3.13.7-1 [1068 B] Get: 109 http://deb.debian.org/debian forky/main arm64 node-commander all 9.4.1-1 [65.3 kB] Get: 110 http://deb.debian.org/debian forky/main arm64 node-mj-context-menu all 0.9.1+ds-2 [69.9 kB] Get: 111 http://deb.debian.org/debian forky/main arm64 node-speech-rule-engine all 4.0.7+~0.1.31-2 [532 kB] Get: 112 http://deb.debian.org/debian forky/main arm64 node-mathjax-full all 3.2.2+~cs4.2.1-4 [3660 kB] Get: 113 http://deb.debian.org/debian forky/main arm64 python-babel-localedata all 2.17.0-1 [6050 kB] Get: 114 http://deb.debian.org/debian forky/main arm64 python-requests-doc all 2.32.5+dfsg-1 [193 kB] Get: 115 http://deb.debian.org/debian forky/main arm64 python3-alabaster all 0.7.16-0.1 [27.9 kB] Get: 116 http://deb.debian.org/debian forky/main arm64 python3-all arm64 3.13.7-1 [1044 B] Get: 117 http://deb.debian.org/debian forky/main arm64 python3.13-dev arm64 3.13.7-1 [504 kB] Get: 118 http://deb.debian.org/debian forky/main arm64 python3-dev arm64 3.13.7-1 [26.1 kB] Get: 119 http://deb.debian.org/debian forky/main arm64 python3-all-dev arm64 3.13.7-1 [1068 B] Get: 120 http://deb.debian.org/debian forky/main arm64 python3-autocommand all 2.2.2-3 [13.6 kB] Get: 121 http://deb.debian.org/debian forky/main arm64 python3-babel all 2.17.0-1 [117 kB] Get: 122 http://deb.debian.org/debian forky/main arm64 python3-certifi all 2025.1.31+ds-1 [9652 B] Get: 123 http://deb.debian.org/debian forky/main arm64 python3-chardet all 5.2.0+dfsg-2 [108 kB] Get: 124 http://deb.debian.org/debian forky/main arm64 python3-charset-normalizer arm64 3.4.3-1 [123 kB] Get: 125 http://deb.debian.org/debian forky/main arm64 python3-decorator all 5.2.1-2 [33.0 kB] Get: 126 http://deb.debian.org/debian forky/main arm64 python3-defusedxml all 0.7.1-3 [43.4 kB] Get: 127 http://deb.debian.org/debian forky/main arm64 python3.13-doc all 3.13.7-1 [15.5 MB] Get: 128 http://deb.debian.org/debian forky/main arm64 python3-doc all 3.13.7-1 [10.4 kB] Get: 129 http://deb.debian.org/debian forky/main arm64 python3-roman all 5.1-1 [11.0 kB] Get: 130 http://deb.debian.org/debian forky/main arm64 python3-docutils all 0.21.2+dfsg-2 [403 kB] Get: 131 http://deb.debian.org/debian forky/main arm64 python3-h5py-serial arm64 3.14.0-3 [972 kB] Get: 132 http://deb.debian.org/debian forky/main arm64 python3-h5py all 3.14.0-3 [18.3 kB] Get: 133 http://deb.debian.org/debian forky/main arm64 python3-idna all 3.10-1 [42.0 kB] Get: 134 http://deb.debian.org/debian forky/main arm64 python3-imagesize all 1.4.1-1 [6688 B] Get: 135 http://deb.debian.org/debian forky/main arm64 python3-more-itertools all 10.8.0-1 [71.7 kB] Get: 136 http://deb.debian.org/debian forky/main arm64 python3-typing-extensions all 4.15.0-1 [92.4 kB] Get: 137 http://deb.debian.org/debian forky/main arm64 python3-typeguard all 4.4.4-1 [37.1 kB] Get: 138 http://deb.debian.org/debian forky/main arm64 python3-inflect all 7.5.0-1 [33.0 kB] Get: 139 http://deb.debian.org/debian forky/main arm64 python3-jaraco.functools all 4.1.0-1 [12.0 kB] Get: 140 http://deb.debian.org/debian forky/main arm64 python3-pkg-resources all 78.1.1-0.1 [224 kB] Get: 141 http://deb.debian.org/debian forky/main arm64 python3-jaraco.text all 4.0.0-1 [11.4 kB] Get: 142 http://deb.debian.org/debian forky/main arm64 python3-zipp all 3.23.0-1 [11.0 kB] Get: 143 http://deb.debian.org/debian forky/main arm64 python3-setuptools all 78.1.1-0.1 [738 kB] Get: 144 http://deb.debian.org/debian forky/main arm64 python3-jaraco.context all 6.0.1-1 [8276 B] Get: 145 http://deb.debian.org/debian forky/main arm64 python3-markupsafe arm64 2.1.5-1+b4 [14.1 kB] Get: 146 http://deb.debian.org/debian forky/main arm64 python3-jinja2 all 3.1.6-1 [107 kB] Get: 147 http://deb.debian.org/debian forky/main arm64 python3-mappy arm64 2.27+dfsg-1+b4 [143 kB] Get: 148 http://deb.debian.org/debian forky/main arm64 python3-nose2 all 0.15.1-1 [118 kB] Get: 149 http://deb.debian.org/debian forky/main arm64 python3-packaging all 25.0-1 [56.6 kB] Get: 150 http://deb.debian.org/debian forky/main arm64 python3-pygments all 2.18.0+dfsg-2 [836 kB] Get: 151 http://deb.debian.org/debian forky/main arm64 python3-urllib3 all 2.5.0-1 [116 kB] Get: 152 http://deb.debian.org/debian forky/main arm64 python3-requests all 2.32.5+dfsg-1 [72.4 kB] Get: 153 http://deb.debian.org/debian forky/main arm64 python3-roman-numerals all 3.1.0-2 [8740 B] Get: 154 http://deb.debian.org/debian forky/main arm64 python3-scipy arm64 1.15.3-1.1 [15.1 MB] Get: 155 http://deb.debian.org/debian forky/main arm64 python3-snowballstemmer all 3.0.1-1 [63.5 kB] Get: 156 http://deb.debian.org/debian forky/main arm64 sphinx-common all 8.2.3-6 [619 kB] Get: 157 http://deb.debian.org/debian forky/main arm64 python3-sphinx all 8.2.3-6 [477 kB] Get: 158 http://deb.debian.org/debian forky/main arm64 python3-sphinx-argparse all 0.5.2-1 [59.6 kB] Get: 159 http://deb.debian.org/debian forky/main arm64 sphinx-rtd-theme-common all 3.0.2+dfsg-3 [1023 kB] Get: 160 http://deb.debian.org/debian forky/main arm64 python3-sphinxcontrib.jquery all 4.1-6 [7496 B] Get: 161 http://deb.debian.org/debian forky/main arm64 python3-sphinx-rtd-theme all 3.0.2+dfsg-3 [29.7 kB] Get: 162 http://deb.debian.org/debian forky/main arm64 python3-tqdm all 4.67.1-5 [90.8 kB] Get: 163 http://deb.debian.org/debian forky/main arm64 sphinx-doc all 8.2.3-6 [3522 kB] Fetched 128 MB in 1s (172 MB/s) Preconfiguring packages ... Selecting previously unselected package fonts-lato. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 20020 files and directories currently installed.) Preparing to unpack .../fonts-lato_2.015-1_all.deb ... Unpacking fonts-lato (2.015-1) ... Selecting previously unselected package libexpat1:arm64. Preparing to unpack .../libexpat1_2.7.2-1_arm64.deb ... Unpacking libexpat1:arm64 (2.7.2-1) ... Selecting previously unselected package libpython3.13-minimal:arm64. 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Adding 'diversion of /lib/aarch64-linux-gnu/libhistory.so.8 to /lib/aarch64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libhistory.so.8.2 to /lib/aarch64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libreadline.so.8 to /lib/aarch64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libreadline.so.8.2 to /lib/aarch64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:arm64 (8.3-3) ... Selecting previously unselected package libpython3.13-stdlib:arm64. Preparing to unpack .../7-libpython3.13-stdlib_3.13.7-1_arm64.deb ... Unpacking libpython3.13-stdlib:arm64 (3.13.7-1) ... Selecting previously unselected package python3.13. Preparing to unpack .../8-python3.13_3.13.7-1_arm64.deb ... Unpacking python3.13 (3.13.7-1) ... 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Selecting previously unselected package python3-numpy-dev:arm64. Preparing to unpack .../001-python3-numpy-dev_1%3a2.2.4+ds-1.2_arm64.deb ... Unpacking python3-numpy-dev:arm64 (1:2.2.4+ds-1.2) ... Selecting previously unselected package libblas3:arm64. Preparing to unpack .../002-libblas3_3.12.1-7_arm64.deb ... Unpacking libblas3:arm64 (3.12.1-7) ... Selecting previously unselected package libgfortran5:arm64. Preparing to unpack .../003-libgfortran5_15.2.0-4_arm64.deb ... Unpacking libgfortran5:arm64 (15.2.0-4) ... Selecting previously unselected package liblapack3:arm64. Preparing to unpack .../004-liblapack3_3.12.1-7_arm64.deb ... Unpacking liblapack3:arm64 (3.12.1-7) ... Selecting previously unselected package python3-numpy. Preparing to unpack .../005-python3-numpy_1%3a2.2.4+ds-1.2_arm64.deb ... Unpacking python3-numpy (1:2.2.4+ds-1.2) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../006-sensible-utils_0.0.26_all.deb ... Unpacking sensible-utils (0.0.26) ... Selecting previously unselected package openssl. Preparing to unpack .../007-openssl_3.5.2-1_arm64.deb ... Unpacking openssl (3.5.2-1) ... Selecting previously unselected package ca-certificates. Preparing to unpack .../008-ca-certificates_20250419_all.deb ... Unpacking ca-certificates (20250419) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../009-libmagic-mgc_1%3a5.46-5_arm64.deb ... Unpacking libmagic-mgc (1:5.46-5) ... Selecting previously unselected package libmagic1t64:arm64. Preparing to unpack .../010-libmagic1t64_1%3a5.46-5_arm64.deb ... Unpacking libmagic1t64:arm64 (1:5.46-5) ... Selecting previously unselected package file. Preparing to unpack .../011-file_1%3a5.46-5_arm64.deb ... Unpacking file (1:5.46-5) ... Selecting previously unselected package gettext-base. Preparing to unpack .../012-gettext-base_0.23.1-2+b1_arm64.deb ... Unpacking gettext-base (0.23.1-2+b1) ... Selecting previously unselected package libuchardet0:arm64. Preparing to unpack .../013-libuchardet0_0.0.8-2_arm64.deb ... Unpacking libuchardet0:arm64 (0.0.8-2) ... Selecting previously unselected package groff-base. Preparing to unpack .../014-groff-base_1.23.0-9_arm64.deb ... Unpacking groff-base (1.23.0-9) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../015-bsdextrautils_2.41.1-3_arm64.deb ... Unpacking bsdextrautils (2.41.1-3) ... Selecting previously unselected package libpipeline1:arm64. Preparing to unpack .../016-libpipeline1_1.5.8-1_arm64.deb ... Unpacking libpipeline1:arm64 (1.5.8-1) ... Selecting previously unselected package man-db. Preparing to unpack .../017-man-db_2.13.1-1_arm64.deb ... Unpacking man-db (2.13.1-1) ... Selecting previously unselected package m4. Preparing to unpack .../018-m4_1.4.20-1_arm64.deb ... Unpacking m4 (1.4.20-1) ... Selecting previously unselected package autoconf. 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Setting up libnghttp2-14:arm64 (1.64.0-1.1+b1) ... Setting up gettext-base (0.23.1-2+b1) ... Setting up m4 (1.4.20-1) ... Setting up node-cjs-module-lexer (1.2.3+dfsg-1) ... Setting up node-mj-context-menu (0.9.1+ds-2) ... Setting up libcom-err2:arm64 (1.47.2-3+b3) ... Setting up file (1:5.46-5) ... Setting up libaec0:arm64 (1.1.4-2) ... Setting up libelf1t64:arm64 (0.193-3) ... Setting up python-babel-localedata (2.17.0-1) ... Setting up libkrb5support0:arm64 (1.21.3-5) ... Setting up libsasl2-modules-db:arm64 (2.1.28+dfsg1-9) ... Setting up tzdata (2025b-5) ... Current default time zone: 'Etc/UTC' Local time is now: Thu Oct 22 11:17:08 UTC 2026. Universal Time is now: Thu Oct 22 11:17:08 UTC 2026. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up autotools-dev (20240727.1) ... Setting up libblas3:arm64 (3.12.1-7) ... update-alternatives: using /usr/lib/aarch64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/aarch64-linux-gnu/libblas.so.3 (libblas.so.3-aarch64-linux-gnu) in auto mode Setting up libexpat1-dev:arm64 (2.7.2-1) ... Setting up node-balanced-match (2.0.0-1) ... Setting up node-brace-expansion (2.0.1+~1.1.0-2) ... Setting up liblzf1:arm64 (3.6-4+b3) ... Setting up libunistring5:arm64 (1.3-2) ... Setting up libcares2:arm64 (1.34.5-1) ... Setting up python3-numpy-dev:arm64 (1:2.2.4+ds-1.2) ... Setting up autopoint (0.23.1-2) ... Setting up libk5crypto3:arm64 (1.21.3-5) ... Setting up libjs-sphinxdoc (8.2.3-6) ... Setting up libsasl2-2:arm64 (2.1.28+dfsg1-9) ... Setting up libgfortran5:arm64 (15.2.0-4) ... Setting up python-requests-doc (2.32.5+dfsg-1) ... Setting up autoconf (2.72-3.1) ... Setting up libnghttp3-9:arm64 (1.11.0-1) ... Setting up zlib1g-dev:arm64 (1:1.3.dfsg+really1.3.1-1+b1) ... Setting up node-commander (9.4.1-1) ... 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Setting up automake (1:1.17-4) ... update-alternatives: using /usr/bin/automake-1.17 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.15.0-1) ... Setting up liblapack3:arm64 (3.12.1-7) ... update-alternatives: using /usr/lib/aarch64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/aarch64-linux-gnu/liblapack.so.3 (liblapack.so.3-aarch64-linux-gnu) in auto mode Setting up gettext (0.23.1-2+b1) ... Setting up libtool (2.5.4-5) ... Setting up libidn2-0:arm64 (2.3.8-4) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (21) ... Setting up python3.13-doc (3.13.7-1) ... Setting up ca-certificates (20250419) ... Updating certificates in /etc/ssl/certs... 150 added, 0 removed; done. Setting up sphinx-common (8.2.3-6) ... Setting up libp11-kit0:arm64 (0.25.5-3) ... Setting up libgssapi-krb5-2:arm64 (1.21.3-5) ... Setting up libreadline8t64:arm64 (8.3-3) ... Setting up dh-strip-nondeterminism (1.15.0-1) ... 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Setting up python3-charset-normalizer (3.4.3-1) ... Setting up python3.13-dev (3.13.7-1) ... Setting up python3-alabaster (0.7.16-0.1) ... Setting up python3-tqdm (4.67.1-5) ... Setting up python3-typeguard (4.4.4-1) ... Setting up python3-all (3.13.7-1) ... Setting up debhelper (13.26) ... Setting up python3-mappy (2.27+dfsg-1+b4) ... Setting up python3-inflect (7.5.0-1) ... Setting up libpython3-all-dev:arm64 (3.13.7-1) ... Setting up python3-jaraco.text (4.0.0-1) ... Setting up python3-dev (3.13.7-1) ... Setting up python3-requests (2.32.5+dfsg-1) ... Setting up libhdf5-310:arm64 (1.14.5+repack-4) ... Setting up python3-pkg-resources (78.1.1-0.1) ... Setting up python3-all-dev (3.13.7-1) ... Setting up libhdf5-hl-310:arm64 (1.14.5+repack-4) ... Setting up python3-setuptools (78.1.1-0.1) ... Setting up python3-h5py-serial (3.14.0-3) ... Setting up python3-nose2 (0.15.1-1) ... Setting up python3-h5py (3.14.0-3) ... Setting up node-corepack (0.24.0-5) ... 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Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/reproducible-path/tombo-1.5.1/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../tombo_1.5.1-7_source.changes dpkg-buildpackage: info: source package tombo dpkg-buildpackage: info: source version 1.5.1-7 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Ananthu C V dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 debian/rules clean dh clean --with python3,sphinxdoc --buildsystem=pybuild dh_auto_clean -O--buildsystem=pybuild I: pybuild base:311: python3.13 setup.py clean /usr/lib/python3/dist-packages/setuptools/_distutils/dist.py:289: UserWarning: Unknown distribution option: 'test_suite' warnings.warn(msg) /usr/lib/python3/dist-packages/setuptools/_distutils/dist.py:289: UserWarning: Unknown distribution option: 'tests_require' warnings.warn(msg) /usr/lib/python3/dist-packages/setuptools/dist.py:759: SetuptoolsDeprecationWarning: License classifiers are deprecated. !! ******************************************************************************** Please consider removing the following classifiers in favor of a SPDX license expression: License :: OSI Approved :: Mozilla Public License 2.0 (MPL 2.0) See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. ******************************************************************************** !! self._finalize_license_expression() running clean removing '/build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build' (and everything under it) 'build/bdist.linux-aarch64' does not exist -- can't clean it 'build/scripts-3.13' does not exist -- can't clean it debian/rules execute_after_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/tombo-1.5.1' rm -f tombo/_c_dynamic_programming.cpp tombo/_c_helper.cpp make[1]: Leaving directory '/build/reproducible-path/tombo-1.5.1' dh_autoreconf_clean -O--buildsystem=pybuild dh_clean -O--buildsystem=pybuild debian/rules binary dh binary --with python3,sphinxdoc --buildsystem=pybuild dh_update_autotools_config -O--buildsystem=pybuild dh_autoreconf -O--buildsystem=pybuild dh_auto_configure -O--buildsystem=pybuild I: pybuild base:311: python3.13 setup.py config /usr/lib/python3/dist-packages/setuptools/_distutils/dist.py:289: UserWarning: Unknown distribution option: 'test_suite' warnings.warn(msg) /usr/lib/python3/dist-packages/setuptools/_distutils/dist.py:289: UserWarning: Unknown distribution option: 'tests_require' warnings.warn(msg) /usr/lib/python3/dist-packages/setuptools/dist.py:759: SetuptoolsDeprecationWarning: License classifiers are deprecated. !! ******************************************************************************** Please consider removing the following classifiers in favor of a SPDX license expression: License :: OSI Approved :: Mozilla Public License 2.0 (MPL 2.0) See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. ******************************************************************************** !! self._finalize_license_expression() running config dh_auto_build -O--buildsystem=pybuild I: pybuild base:311: /usr/bin/python3 setup.py build /usr/lib/python3/dist-packages/setuptools/_distutils/dist.py:289: UserWarning: Unknown distribution option: 'test_suite' warnings.warn(msg) /usr/lib/python3/dist-packages/setuptools/_distutils/dist.py:289: UserWarning: Unknown distribution option: 'tests_require' warnings.warn(msg) /usr/lib/python3/dist-packages/setuptools/dist.py:759: SetuptoolsDeprecationWarning: License classifiers are deprecated. !! ******************************************************************************** Please consider removing the following classifiers in favor of a SPDX license expression: License :: OSI Approved :: Mozilla Public License 2.0 (MPL 2.0) See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. ******************************************************************************** !! self._finalize_license_expression() running build running build_py creating /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo copying tombo/_plot_commands.py -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo copying tombo/_event_resquiggle.py -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo copying tombo/_preprocess.py -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo copying tombo/tombo_stats.py -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo copying tombo/resquiggle.py -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo copying tombo/tombo_helper.py -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo copying tombo/_version.py -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo copying tombo/_text_output_commands.py -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo copying tombo/_option_parsers.py -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo copying tombo/_filter_reads.py -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo copying tombo/_default_parameters.py -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo copying tombo/__main__.py -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo copying tombo/__init__.py -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo running egg_info creating ont_tombo.egg-info writing ont_tombo.egg-info/PKG-INFO writing dependency_links to ont_tombo.egg-info/dependency_links.txt writing entry points to ont_tombo.egg-info/entry_points.txt writing requirements to ont_tombo.egg-info/requires.txt writing top-level names to ont_tombo.egg-info/top_level.txt writing manifest file 'ont_tombo.egg-info/SOURCES.txt' reading manifest file 'ont_tombo.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no files found matching '*' under directory 'cython' adding license file 'LICENSE.md' writing manifest file 'ont_tombo.egg-info/SOURCES.txt' /usr/lib/python3/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'tombo.R_scripts' is absent from the `packages` configuration. !! ******************************************************************************** ############################ # Package would be ignored # ############################ Python recognizes 'tombo.R_scripts' as an importable package[^1], but it is absent from setuptools' `packages` configuration. This leads to an ambiguous overall configuration. If you want to distribute this package, please make sure that 'tombo.R_scripts' is explicitly added to the `packages` configuration field. Alternatively, you can also rely on setuptools' discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html If you don't want 'tombo.R_scripts' to be distributed and are already explicitly excluding 'tombo.R_scripts' via `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, you can try to use `exclude_package_data`, or `include-package-data=False` in combination with a more fine grained `package-data` configuration. You can read more about "package data files" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/datafiles.html [^1]: For Python, any directory (with suitable naming) can be imported, even if it does not contain any `.py` files. On the other hand, currently there is no concept of package data directory, all directories are treated like packages. ******************************************************************************** !! check.warn(importable) /usr/lib/python3/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'tombo.tombo_models' is absent from the `packages` configuration. !! ******************************************************************************** ############################ # Package would be ignored # ############################ Python recognizes 'tombo.tombo_models' as an importable package[^1], but it is absent from setuptools' `packages` configuration. This leads to an ambiguous overall configuration. If you want to distribute this package, please make sure that 'tombo.tombo_models' is explicitly added to the `packages` configuration field. Alternatively, you can also rely on setuptools' discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html If you don't want 'tombo.tombo_models' to be distributed and are already explicitly excluding 'tombo.tombo_models' via `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, you can try to use `exclude_package_data`, or `include-package-data=False` in combination with a more fine grained `package-data` configuration. You can read more about "package data files" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/datafiles.html [^1]: For Python, any directory (with suitable naming) can be imported, even if it does not contain any `.py` files. On the other hand, currently there is no concept of package data directory, all directories are treated like packages. ******************************************************************************** !! check.warn(importable) copying tombo/_c_dynamic_programming.pyx -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo copying tombo/_c_helper.pyx -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo creating /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/R_scripts copying tombo/R_scripts/debugDP.R -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/R_scripts copying tombo/R_scripts/debugFit.R -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/R_scripts copying tombo/R_scripts/debugRawDP.R -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/R_scripts copying tombo/R_scripts/plotGroupComp.R -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/R_scripts copying tombo/R_scripts/plotKmerDist.R -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/R_scripts copying tombo/R_scripts/plotModelComp.R -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/R_scripts copying tombo/R_scripts/plotMotifStats.R -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/R_scripts copying tombo/R_scripts/plotMultiReadCorr.R -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/R_scripts copying tombo/R_scripts/plotPerReadStats.R -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/R_scripts copying tombo/R_scripts/plotROC.R -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/R_scripts copying tombo/R_scripts/plotROCPerRead.R -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/R_scripts copying tombo/R_scripts/plotReadCorr.R -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/R_scripts copying tombo/R_scripts/plotSigMDS.R -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/R_scripts copying tombo/R_scripts/plotSingleRead.R -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/R_scripts copying tombo/R_scripts/plotSingleRun.R -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/R_scripts creating /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/tombo_models copying tombo/tombo_models/tombo.DNA.5mC.model -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/tombo_models copying tombo/tombo_models/tombo.DNA.6mA.model -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/tombo_models copying tombo/tombo_models/tombo.DNA.CpG.model -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/tombo_models copying tombo/tombo_models/tombo.DNA.dam.model -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/tombo_models copying tombo/tombo_models/tombo.DNA.dcm.model -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/tombo_models copying tombo/tombo_models/tombo.DNA.model -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/tombo_models copying tombo/tombo_models/tombo.RNA.180mV.model -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/tombo_models copying tombo/tombo_models/tombo.RNA.200mV.model -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/tombo_models copying tombo/tombo_models/tombo.RNA.5mC.model -> /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/tombo_models running build_ext /usr/lib/python3/dist-packages/Cython/Compiler/Main.py:381: FutureWarning: Cython directive 'language_level' not set, using '3str' for now (Py3). This has changed from earlier releases! File: /build/reproducible-path/tombo-1.5.1/tombo/_c_dynamic_programming.pyx tree = Parsing.p_module(s, pxd, full_module_name) Compiling tombo/_c_dynamic_programming.pyx because it changed. [1/1] Cythonizing tombo/_c_dynamic_programming.pyx building 'tombo._c_dynamic_programming' extension creating build/temp.linux-aarch64-cpython-313/tombo aarch64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/tombo-1.5.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c tombo/_c_dynamic_programming.cpp -o build/temp.linux-aarch64-cpython-313/tombo/_c_dynamic_programming.o In file included from /usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarraytypes.h:1913, from /usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarrayobject.h:12, from /usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayobject.h:5, from tombo/_c_dynamic_programming.cpp:1262: /usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 17 | #warning "Using deprecated NumPy API, disable it with " \ | ^~~~~~~ aarch64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/tombo-1.5.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/reproducible-path/tombo-1.5.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-aarch64-cpython-313/tombo/_c_dynamic_programming.o -L/usr/lib/aarch64-linux-gnu -o /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/_c_dynamic_programming.cpython-313-aarch64-linux-gnu.so /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libm.so.6: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libmvec.so.1: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libc.so.6: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/ld-linux-aarch64.so.1: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/python3/dist-packages/Cython/Compiler/Main.py:381: FutureWarning: Cython directive 'language_level' not set, using '3str' for now (Py3). This has changed from earlier releases! File: /build/reproducible-path/tombo-1.5.1/tombo/_c_helper.pyx tree = Parsing.p_module(s, pxd, full_module_name) Compiling tombo/_c_helper.pyx because it changed. [1/1] Cythonizing tombo/_c_helper.pyx building 'tombo._c_helper' extension aarch64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/tombo-1.5.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include -I/usr/include/python3.13 -c tombo/_c_helper.cpp -o build/temp.linux-aarch64-cpython-313/tombo/_c_helper.o In file included from /usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarraytypes.h:1913, from /usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include/numpy/ndarrayobject.h:12, from /usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include/numpy/arrayobject.h:5, from tombo/_c_helper.cpp:1262: /usr/lib/aarch64-linux-gnu/python3-numpy/numpy/_core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 17 | #warning "Using deprecated NumPy API, disable it with " \ | ^~~~~~~ aarch64-linux-gnu-g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/tombo-1.5.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/reproducible-path/tombo-1.5.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-aarch64-cpython-313/tombo/_c_helper.o -L/usr/lib/aarch64-linux-gnu -o /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/_c_helper.cpython-313-aarch64-linux-gnu.so /usr/lib/gcc/aarch64-linux-gnu/15/libstdc++.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libm.so.6: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libmvec.so.1: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libc.so.6: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/ld-linux-aarch64.so.1: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. debian/rules execute_after_dh_auto_build make[1]: Entering directory '/build/reproducible-path/tombo-1.5.1' sphinx-build -N -bhtml docs docs/build Running Sphinx v8.2.3 WARNING: Calling get_html_theme_path is deprecated. If you are calling it to define html_theme_path, you are safe to remove that code. loading translations [en]... done making output directory... done Converting `source_suffix = '.rst'` to `source_suffix = {'.rst': 'restructuredtext'}`. building [mo]: targets for 0 po files that are out of date writing output... building [html]: targets for 11 source files that are out of date updating environment: [new config] 11 added, 0 changed, 0 removed reading sources... [ 9%] examples reading sources... [ 18%] filtering reading sources... [ 27%] index reading sources... [ 36%] model_training reading sources... [ 45%] modified_base_detection reading sources... [ 55%] plotting reading sources... [ 64%] resquiggle reading sources... [ 73%] rna reading sources... [ 82%] text_output reading sources... [ 91%] tombo reading sources... [100%] tutorials WARNING: autodoc: failed to import module 'tombo'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'tombo'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'resquiggle' from module 'tombo'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'tombo'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'tombo_helper' from module 'tombo'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'tombo'\n"] [autodoc.import_object] WARNING: autodoc: failed to import module 'tombo_stats' from module 'tombo'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 269, in import_object\n module = import_module(modname, try_reload=True)\n', ' File "/usr/lib/python3/dist-packages/sphinx/ext/autodoc/importer.py", line 172, in import_module\n raise ModuleNotFoundError(msg, name=modname) # NoQA: TRY301\n ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^\n', "ModuleNotFoundError: No module named 'tombo'\n"] [autodoc.import_object] looking for now-outdated files... none found pickling environment... done checking consistency... done preparing documents... done copying assets... copying static files... Writing evaluated template result to /build/reproducible-path/tombo-1.5.1/docs/build/_static/language_data.js Writing evaluated template result to /build/reproducible-path/tombo-1.5.1/docs/build/_static/documentation_options.js Writing evaluated template result to /build/reproducible-path/tombo-1.5.1/docs/build/_static/basic.css Writing evaluated template result to /build/reproducible-path/tombo-1.5.1/docs/build/_static/js/versions.js copying static files: done copying extra files... copying extra files: done copying assets: done writing output... [ 9%] examples writing output... [ 18%] filtering writing output... [ 27%] index writing output... [ 36%] model_training writing output... [ 45%] modified_base_detection writing output... [ 55%] plotting writing output... [ 64%] resquiggle writing output... [ 73%] rna writing output... [ 82%] text_output writing output... [ 91%] tombo writing output... [100%] tutorials generating indices... genindex done highlighting module code... writing additional pages... search done copying images... [ 4%] _images/testing_method_comparison.png copying images... [ 9%] _images/alt_density_est.png copying images... [ 13%] _images/old_correction_plot.png copying images... [ 17%] _images/outlier_robust_llr.gif copying images... [ 22%] _images/dampened_fraction.png copying images... [ 26%] _images/single_samp.png copying images... [ 30%] _images/sample_comp.png copying images... [ 35%] _images/model_comp.png copying images... [ 39%] _images/alt_model_comp.png copying images... [ 43%] _images/boxplot.png copying images... [ 48%] _images/quantile.png copying images... [ 52%] _images/density.png copying images... [ 57%] _images/pre_read_5mC.png copying images... [ 61%] _images/per_read_do_novo.png copying images... [ 65%] _images/stat_dist.png copying images... [ 70%] _images/kmer_levels.png copying images... [ 74%] _images/roc.png copying images... [ 78%] _images/per_read_stat_dist.png copying images... [ 83%] _images/begin_half_z_scores.png copying images... [ 87%] _images/begin_forward_pass.png copying images... [ 91%] _images/adaptive_half_z_scores.png copying images... [ 96%] _images/adaptive_forward_pass.png copying images... [100%] _images/stat_dist_null.png dumping search index in English (code: en)... done dumping object inventory... done build succeeded, 5 warnings. The HTML pages are in docs/build. make[1]: Leaving directory '/build/reproducible-path/tombo-1.5.1' dh_auto_test -O--buildsystem=pybuild I: pybuild base:311: cd /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build; python3.13 -m nose2 -v ---------------------------------------------------------------------- Ran 0 tests in 0.000s OK create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=pybuild dh_prep -O--buildsystem=pybuild dh_auto_install -O--buildsystem=pybuild I: pybuild base:311: /usr/bin/python3 setup.py install --root /build/reproducible-path/tombo-1.5.1/debian/tmp /usr/lib/python3/dist-packages/setuptools/_distutils/dist.py:289: UserWarning: Unknown distribution option: 'test_suite' warnings.warn(msg) /usr/lib/python3/dist-packages/setuptools/_distutils/dist.py:289: UserWarning: Unknown distribution option: 'tests_require' warnings.warn(msg) /usr/lib/python3/dist-packages/setuptools/dist.py:759: SetuptoolsDeprecationWarning: License classifiers are deprecated. !! ******************************************************************************** Please consider removing the following classifiers in favor of a SPDX license expression: License :: OSI Approved :: Mozilla Public License 2.0 (MPL 2.0) See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. ******************************************************************************** !! self._finalize_license_expression() running install /usr/lib/python3/dist-packages/setuptools/_distutils/cmd.py:90: SetuptoolsDeprecationWarning: setup.py install is deprecated. !! ******************************************************************************** Please avoid running ``setup.py`` directly. Instead, use pypa/build, pypa/installer or other standards-based tools. See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. ******************************************************************************** !! self.initialize_options() running build running build_py running egg_info writing ont_tombo.egg-info/PKG-INFO writing dependency_links to ont_tombo.egg-info/dependency_links.txt writing entry points to ont_tombo.egg-info/entry_points.txt writing requirements to ont_tombo.egg-info/requires.txt writing top-level names to ont_tombo.egg-info/top_level.txt reading manifest file 'ont_tombo.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no files found matching '*' under directory 'cython' adding license file 'LICENSE.md' writing manifest file 'ont_tombo.egg-info/SOURCES.txt' /usr/lib/python3/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'tombo.R_scripts' is absent from the `packages` configuration. !! ******************************************************************************** ############################ # Package would be ignored # ############################ Python recognizes 'tombo.R_scripts' as an importable package[^1], but it is absent from setuptools' `packages` configuration. This leads to an ambiguous overall configuration. If you want to distribute this package, please make sure that 'tombo.R_scripts' is explicitly added to the `packages` configuration field. Alternatively, you can also rely on setuptools' discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html If you don't want 'tombo.R_scripts' to be distributed and are already explicitly excluding 'tombo.R_scripts' via `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, you can try to use `exclude_package_data`, or `include-package-data=False` in combination with a more fine grained `package-data` configuration. You can read more about "package data files" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/datafiles.html [^1]: For Python, any directory (with suitable naming) can be imported, even if it does not contain any `.py` files. On the other hand, currently there is no concept of package data directory, all directories are treated like packages. ******************************************************************************** !! check.warn(importable) /usr/lib/python3/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'tombo.tombo_models' is absent from the `packages` configuration. !! ******************************************************************************** ############################ # Package would be ignored # ############################ Python recognizes 'tombo.tombo_models' as an importable package[^1], but it is absent from setuptools' `packages` configuration. This leads to an ambiguous overall configuration. If you want to distribute this package, please make sure that 'tombo.tombo_models' is explicitly added to the `packages` configuration field. Alternatively, you can also rely on setuptools' discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html If you don't want 'tombo.tombo_models' to be distributed and are already explicitly excluding 'tombo.tombo_models' via `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, you can try to use `exclude_package_data`, or `include-package-data=False` in combination with a more fine grained `package-data` configuration. You can read more about "package data files" on setuptools documentation page: - https://setuptools.pypa.io/en/latest/userguide/datafiles.html [^1]: For Python, any directory (with suitable naming) can be imported, even if it does not contain any `.py` files. On the other hand, currently there is no concept of package data directory, all directories are treated like packages. ******************************************************************************** !! check.warn(importable) running build_ext running install_lib creating /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.13/dist-packages creating /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.13/dist-packages/tombo copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/_c_helper.cpython-313-aarch64-linux-gnu.so -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.13/dist-packages/tombo copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/_c_dynamic_programming.cpython-313-aarch64-linux-gnu.so -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.13/dist-packages/tombo creating /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.13/dist-packages/tombo/tombo_models copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/tombo_models/tombo.RNA.5mC.model -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.13/dist-packages/tombo/tombo_models copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/tombo_models/tombo.RNA.200mV.model -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.13/dist-packages/tombo/tombo_models copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/tombo_models/tombo.RNA.180mV.model -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.13/dist-packages/tombo/tombo_models copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/tombo_models/tombo.DNA.model -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.13/dist-packages/tombo/tombo_models copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/tombo_models/tombo.DNA.dcm.model -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.13/dist-packages/tombo/tombo_models copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/tombo_models/tombo.DNA.dam.model -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.13/dist-packages/tombo/tombo_models copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/tombo_models/tombo.DNA.CpG.model -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.13/dist-packages/tombo/tombo_models copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/tombo_models/tombo.DNA.6mA.model -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.13/dist-packages/tombo/tombo_models copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/tombo_models/tombo.DNA.5mC.model -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.13/dist-packages/tombo/tombo_models creating /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.13/dist-packages/tombo/R_scripts copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/R_scripts/plotSingleRun.R -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.13/dist-packages/tombo/R_scripts copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/R_scripts/plotSingleRead.R -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.13/dist-packages/tombo/R_scripts copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/R_scripts/plotSigMDS.R -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.13/dist-packages/tombo/R_scripts copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/R_scripts/plotReadCorr.R -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.13/dist-packages/tombo/R_scripts copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/R_scripts/plotROCPerRead.R -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.13/dist-packages/tombo/R_scripts copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/R_scripts/plotROC.R -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.13/dist-packages/tombo/R_scripts copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/R_scripts/plotPerReadStats.R -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.13/dist-packages/tombo/R_scripts copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/R_scripts/plotMultiReadCorr.R -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.13/dist-packages/tombo/R_scripts copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/R_scripts/plotMotifStats.R -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.13/dist-packages/tombo/R_scripts copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/R_scripts/plotModelComp.R -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.13/dist-packages/tombo/R_scripts copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/R_scripts/plotKmerDist.R -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.13/dist-packages/tombo/R_scripts copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/R_scripts/plotGroupComp.R -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.13/dist-packages/tombo/R_scripts copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/R_scripts/debugRawDP.R -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.13/dist-packages/tombo/R_scripts copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/R_scripts/debugFit.R -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.13/dist-packages/tombo/R_scripts copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/R_scripts/debugDP.R -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.13/dist-packages/tombo/R_scripts copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/_c_helper.pyx -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.13/dist-packages/tombo copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/_c_dynamic_programming.pyx -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.13/dist-packages/tombo copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/__init__.py -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.13/dist-packages/tombo copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/__main__.py -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.13/dist-packages/tombo copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/_default_parameters.py -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.13/dist-packages/tombo copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/_filter_reads.py -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.13/dist-packages/tombo copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/_option_parsers.py -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.13/dist-packages/tombo copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/_text_output_commands.py -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.13/dist-packages/tombo copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/_version.py -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.13/dist-packages/tombo copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/tombo_helper.py -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.13/dist-packages/tombo copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/resquiggle.py -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.13/dist-packages/tombo copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/tombo_stats.py -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.13/dist-packages/tombo copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/_preprocess.py -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.13/dist-packages/tombo copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/_event_resquiggle.py -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.13/dist-packages/tombo copying /build/reproducible-path/tombo-1.5.1/.pybuild/cpython3_3.13/build/tombo/_plot_commands.py -> /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.13/dist-packages/tombo byte-compiling /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.13/dist-packages/tombo/__init__.py to __init__.cpython-313.pyc byte-compiling /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.13/dist-packages/tombo/__main__.py to __main__.cpython-313.pyc byte-compiling /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.13/dist-packages/tombo/_default_parameters.py to _default_parameters.cpython-313.pyc byte-compiling /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.13/dist-packages/tombo/_filter_reads.py to _filter_reads.cpython-313.pyc byte-compiling /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.13/dist-packages/tombo/_option_parsers.py to _option_parsers.cpython-313.pyc byte-compiling /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.13/dist-packages/tombo/_text_output_commands.py to _text_output_commands.cpython-313.pyc byte-compiling /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.13/dist-packages/tombo/_version.py to _version.cpython-313.pyc byte-compiling /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.13/dist-packages/tombo/tombo_helper.py to tombo_helper.cpython-313.pyc byte-compiling /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.13/dist-packages/tombo/resquiggle.py to resquiggle.cpython-313.pyc byte-compiling /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.13/dist-packages/tombo/tombo_stats.py to tombo_stats.cpython-313.pyc byte-compiling /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.13/dist-packages/tombo/_preprocess.py to _preprocess.cpython-313.pyc byte-compiling /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.13/dist-packages/tombo/_event_resquiggle.py to _event_resquiggle.cpython-313.pyc byte-compiling /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.13/dist-packages/tombo/_plot_commands.py to _plot_commands.cpython-313.pyc running install_egg_info Copying ont_tombo.egg-info to /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/lib/python3.13/dist-packages/ont_tombo-1.5.1.egg-info Skipping SOURCES.txt running install_scripts Installing tombo script to /build/reproducible-path/tombo-1.5.1/debian/tmp/usr/bin dh_install -O--buildsystem=pybuild debian/rules execute_after_dh_install make[1]: Entering directory '/build/reproducible-path/tombo-1.5.1' rm -f docs/tombo.rst rm -rf docs/build make[1]: Leaving directory '/build/reproducible-path/tombo-1.5.1' dh_installdocs -O--buildsystem=pybuild dh_sphinxdoc -O--buildsystem=pybuild dh_installchangelogs -O--buildsystem=pybuild dh_installman -O--buildsystem=pybuild dh_python3 -O--buildsystem=pybuild I: dh_python3 tools:114: replacing shebang in debian/tombo/usr/share/tombo/scripts/dump_per_read_statistics.py I: dh_python3 tools:114: replacing shebang in debian/tombo/usr/bin/tombo debian/rules execute_after_dh_python3 make[1]: Entering directory '/build/reproducible-path/tombo-1.5.1' dh_numpy3 Possible precedence issue with control flow operator (return) at /usr/bin/dh_numpy3 line 57. make[1]: Leaving directory '/build/reproducible-path/tombo-1.5.1' dh_installsystemduser -O--buildsystem=pybuild dh_perl -O--buildsystem=pybuild dh_link -O--buildsystem=pybuild dh_strip_nondeterminism -O--buildsystem=pybuild dh_compress -O--buildsystem=pybuild dh_fixperms -O--buildsystem=pybuild debian/rules execute_after_dh_fixperms make[1]: Entering directory '/build/reproducible-path/tombo-1.5.1' find debian -name "*.model" -exec chmod -x {} \; find debian -name "shell_tests.sh" -type f -executable -exec chmod -x {} \+ make[1]: Leaving directory '/build/reproducible-path/tombo-1.5.1' dh_missing -O--buildsystem=pybuild dh_dwz -a -O--buildsystem=pybuild dh_strip -a -O--buildsystem=pybuild dh_makeshlibs -a -O--buildsystem=pybuild dh_shlibdeps -a -O--buildsystem=pybuild dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 from: /lib/ld-linux-aarch64.so.1 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 to: /lib/ld-linux-aarch64.so.1.usr-is-merged dh_installdeb -O--buildsystem=pybuild dh_gencontrol -O--buildsystem=pybuild dpkg-gencontrol: warning: package tombo-doc: substitution variable ${sphinxdoc:Built-Using} unused, but is defined dh_md5sums -O--buildsystem=pybuild dh_builddeb -O--buildsystem=pybuild dpkg-deb: building package 'tombo' in '../tombo_1.5.1-7_arm64.deb'. dpkg-deb: building package 'tombo-dbgsym' in '../tombo-dbgsym_1.5.1-7_arm64.deb'. dpkg-deb: building package 'tombo-doc' in '../tombo-doc_1.5.1-7_all.deb'. dpkg-genbuildinfo --build=binary -O../tombo_1.5.1-7_arm64.buildinfo dpkg-genchanges --build=binary -O../tombo_1.5.1-7_arm64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/3220342 and its subdirectories I: Current time: Wed Oct 21 23:18:10 -12 2026 I: pbuilder-time-stamp: 1792667890 Fri Sep 19 04:55:12 UTC 2025 I: 1st build successful. Starting 2nd build on remote node codethink04-arm64.debian.net. Fri Sep 19 04:55:12 UTC 2025 I: Preparing to do remote build '2' on codethink04-arm64.debian.net. Fri Sep 19 04:58:08 UTC 2025 I: Deleting $TMPDIR on codethink04-arm64.debian.net. Fri Sep 19 04:58:08 UTC 2025 I: tombo_1.5.1-7_arm64.changes: Format: 1.8 Date: Thu, 28 Nov 2024 01:40:55 +0530 Source: tombo Binary: tombo tombo-dbgsym tombo-doc Architecture: arm64 all Version: 1.5.1-7 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Ananthu C V Description: tombo - identification of modified nucleotides from raw nanopore sequenci tombo-doc - identification of modified nucleotides from raw nanopore sequenci Closes: 1049071 1083801 1087117 Changes: tombo (1.5.1-7) unstable; urgency=medium . * Team upload * Use execute_after hooks instead of overriding targets * Remove built doc files from debian source tree after they are installed * Make sure to clean built files before next build (Closes: #1049071) * Add patch to use importlib instead of deprecated pkg_resources (Closes: #1083801) * Correct patch header metadata * Add patch to drop distutils usage * Apply wrap-and-sort * Fix installed file permissions * Add patch to remove badges from built docs * Add patch to fix invalid escape sequence syntax warnings (Closes: #1087117) * Bump Standards-Version to 4.7.0 (no changes needed) Checksums-Sha1: fae76336320b63cd88de03aa775a2f0021414a9e 556448 tombo-dbgsym_1.5.1-7_arm64.deb 021cd3973136874f3eb056c79f63009b7726591b 21733880 tombo-doc_1.5.1-7_all.deb 8f9651a3a8dad18028d7bda3538a258f2bcde52d 9430 tombo_1.5.1-7_arm64.buildinfo 579739912b8e58e866f12c761d95d8e091c57ce5 435328 tombo_1.5.1-7_arm64.deb Checksums-Sha256: 365b71bb3f120a6acf0e32b454ba03c70e08fd82f2d800fb26cbb4c6b65233b8 556448 tombo-dbgsym_1.5.1-7_arm64.deb 3cf8401d9e8507ddf58eea03491846ff54386d4748c2371ff90c7643a47e0a25 21733880 tombo-doc_1.5.1-7_all.deb 3cf0b691059d5db3638dd74dacac1bf8e8136d2eeddf5638580a29a354d90b67 9430 tombo_1.5.1-7_arm64.buildinfo 4a606f25d41eefb50b0f79d628970e0b6e34462331796853124af8986b5e4e84 435328 tombo_1.5.1-7_arm64.deb Files: 8e10673342dc63ac0d820236213bebd2 556448 debug optional tombo-dbgsym_1.5.1-7_arm64.deb 05d21ac025ff2d32b0d02166d2d9bd2f 21733880 doc optional tombo-doc_1.5.1-7_all.deb 2e6a57a83c2ce591cad02ce208b874c1 9430 science optional tombo_1.5.1-7_arm64.buildinfo f458dbfa517b887effd0241da75d6508 435328 science optional tombo_1.5.1-7_arm64.deb Fri Sep 19 04:58:09 UTC 2025 I: diffoscope 306 will be used to compare the two builds: Running as unit: rb-diffoscope-arm64_5-121803.service; invocation ID: 28f094ff1e7f4079a075bb3894fd2e46 # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.QV9Bk9PJ/tombo_1.5.1-7.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.QV9Bk9PJ/tombo_1.5.1-7.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.QV9Bk9PJ/tombo_1.5.1-7.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.QV9Bk9PJ/b1/tombo_1.5.1-7_arm64.changes /srv/reproducible-results/rbuild-debian/r-b-build.QV9Bk9PJ/b2/tombo_1.5.1-7_arm64.changes ## command (total time: 0.000s) 0.000s 1 call cmp (internal) ## has_same_content_as (total time: 0.000s) 0.000s 1 call diffoscope.comparators.binary.FilesystemFile ## main (total time: 0.003s) 0.003s 2 calls outputs 0.000s 1 call cleanup Finished with result: success Main processes terminated with: code=exited, status=0/SUCCESS Service runtime: 200ms CPU time consumed: 167ms Memory peak: 17.8M (swap: 0B) Fri Sep 19 04:58:10 UTC 2025 I: diffoscope 306 found no differences in the changes files, and a .buildinfo file also exists. Fri Sep 19 04:58:10 UTC 2025 I: tombo from forky built successfully and reproducibly on arm64. Fri Sep 19 04:58:10 UTC 2025 I: Removing signed tombo_1.5.1-7_arm64.buildinfo.asc files: removed './b1/tombo_1.5.1-7_arm64.buildinfo.asc' removed './b2/tombo_1.5.1-7_arm64.buildinfo.asc'